GREMLIN Database
LYTH - L-Ala--D-Glu endopeptidase
UniProt: O32130 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 326 (282)
Sequences: 3500 (3166)
Seq/√Len: 188.5

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
253_L273_G3.8161.00
242_D248_H3.1101.00
228_K256_F3.1081.00
217_V253_L3.0951.00
189_R210_F2.9451.00
211_A275_V2.8141.00
277_S288_K2.7691.00
191_T311_Y2.7201.00
257_A274_S2.6751.00
216_P271_V2.6161.00
192_W307_S2.5971.00
180_L209_I2.4951.00
213_Y291_P2.4811.00
179_P268_P2.3501.00
222_Y267_E2.2891.00
219_S240_I2.1351.00
220_T295_Y2.0621.00
234_G251_A2.0431.00
145_L149_Y1.9791.00
138_E142_R1.9531.00
103_D107_M1.9151.00
253_L256_F1.8791.00
220_T248_H1.8461.00
224_V265_I1.8031.00
187_S210_F1.8001.00
190_S195_A1.7951.00
197_G202_R1.7831.00
109_G112_D1.7731.00
140_N144_G1.7601.00
151_R154_T1.7521.00
260_I264_Q1.7461.00
186_Y209_I1.7331.00
126_T130_Y1.7321.00
127_F131_L1.7311.00
110_D114_K1.7271.00
248_H297_M1.7191.00
149_Y153_Q1.7141.00
141_I145_L1.7091.00
251_A296_G1.6881.00
147_N151_R1.6851.00
205_E296_G1.6771.00
208_D294_H1.6531.00
117_V121_E1.5961.00
133_S137_D1.5921.00
142_R146_W1.5871.00
267_E270_Q1.5521.00
96_P100_K1.5441.00
217_V275_V1.5431.00
240_I272_I1.5421.00
152_D155_V1.5251.00
67_L74_I1.5141.00
194_D203_I1.5041.00
146_W150_R1.4791.00
271_V274_S1.4681.00
197_G200_G1.4581.00
137_D140_N1.4451.00
95_A98_S1.4391.00
239_G249_Y1.4361.00
132_L136_T1.4311.00
102_F105_I1.4311.00
150_R154_T1.4201.00
25_S29_L1.4061.00
106_G110_D1.3971.00
85_G89_P1.3971.00
218_K271_V1.3531.00
130_Y133_S1.3521.00
86_P89_P1.3491.00
116_E119_N1.3461.00
134_Y137_D1.3431.00
220_T250_F1.3391.00
123_I126_T1.3361.00
105_I109_G1.3331.00
144_G147_N1.3261.00
238_I272_I1.3121.00
183_R218_K1.3031.00
180_L186_Y1.2961.00
124_L128_S1.2951.00
204_H208_D1.2911.00
239_G247_Y1.2831.00
151_R155_V1.2651.00
143_I147_N1.2591.00
208_D292_H1.2581.00
221_C268_P1.2541.00
238_I253_L1.2531.00
134_Y138_E1.2501.00
157_I161_F1.2481.00
101_V105_I1.2461.00
246_T299_K1.2421.00
146_W149_Y1.2411.00
104_G107_M1.2391.00
226_E241_R1.2381.00
260_I270_Q1.2261.00
211_A215_L1.2251.00
119_N123_I1.2181.00
275_V293_L1.2151.00
139_D142_R1.2141.00
120_D124_L1.2101.00
135_G139_D1.1841.00
261_K264_Q1.1751.00
190_S204_H1.1701.00
63_N66_D1.1691.00
112_D115_A1.1661.00
148_Y152_D1.1661.00
113_G117_V1.1651.00
21_G24_L1.1641.00
226_E247_Y1.1571.00
21_G25_S1.1561.00
92_K96_P1.1461.00
309_D312_P1.1461.00
49_A52_A1.1411.00
125_Y129_Q1.1311.00
107_M111_G1.1291.00
70_K74_I1.1261.00
70_K73_I1.1251.00
255_G274_S1.1221.00
137_D141_I1.1191.00
62_S66_D1.1191.00
81_D88_N1.1151.00
24_L27_P1.1141.00
93_D97_L1.1091.00
157_I160_E1.1071.00
19_A22_K1.1071.00
233_F251_A1.1041.00
100_K103_D1.1001.00
108_D112_D1.0971.00
156_G159_S1.0951.00
275_V291_P1.0911.00
208_D252_H1.0901.00
120_D123_I1.0901.00
40_E43_T1.0891.00
77_Y80_D1.0851.00
142_R145_L1.0831.00
100_K104_G1.0751.00
141_I144_G1.0731.00
55_Q59_N1.0721.00
234_G296_G1.0711.00
139_D143_I1.0681.00
231_N237_R1.0661.00
207_T311_Y1.0651.00
128_S131_L1.0611.00
236_W278_S1.0601.00
18_S22_K1.0551.00
148_Y151_R1.0511.00
204_H292_H1.0501.00
298_Y307_S1.0501.00
182_I186_Y1.0471.00
84_S87_E1.0471.00
213_Y254_N1.0471.00
227_M239_G1.0451.00
81_D84_S1.0451.00
66_D70_K1.0431.00
224_V241_R1.0391.00
114_K117_V1.0291.00
73_I77_Y1.0211.00
161_F165_F1.0191.00
78_I82_I1.0181.00
257_A271_V1.0161.00
196_R199_G1.0141.00
160_E163_K1.0091.00
144_G148_Y1.0081.00
150_R153_Q1.0061.00
158_I162_M1.0051.00
147_N150_R1.0040.99
106_G109_G1.0040.99
207_T314_L1.0010.99
45_I49_A1.0000.99
90_N94_D0.9970.99
145_L148_Y0.9970.99
39_I43_T0.9960.99
154_T157_I0.9940.99
81_D85_G0.9920.99
152_D156_G0.9900.99
64_R68_P0.9880.99
135_G138_E0.9870.99
127_F130_Y0.9850.99
74_I78_I0.9800.99
98_S102_F0.9790.99
252_H279_G0.9740.99
102_F106_G0.9740.99
82_I85_G0.9720.99
68_P71_A0.9720.99
118_S122_D0.9710.99
50_L54_D0.9630.99
112_D116_E0.9630.99
138_E145_L0.9610.99
215_L275_V0.9540.99
183_R186_Y0.9520.99
63_N67_L0.9510.99
36_Y40_E0.9490.99
237_R251_A0.9440.99
161_F164_L0.9370.99
122_D126_T0.9350.99
103_D106_G0.9340.99
277_S291_P0.9320.99
109_G113_G0.9290.99
222_Y268_P0.9260.99
230_W236_W0.9240.99
246_T297_M0.9240.99
257_A273_G0.9180.99
83_W87_E0.9150.99
114_K118_S0.9110.99
31_K34_E0.9030.99
84_S88_N0.8950.99
119_N122_D0.8930.99
212_H215_L0.8920.99
132_L135_G0.8900.99
234_G249_Y0.8840.99
52_A55_Q0.8790.99
196_R201_R0.8780.99
149_Y152_D0.8770.99
296_G307_S0.8760.99
32_R36_Y0.8740.99
237_R249_Y0.8710.99
56_Y59_N0.8690.99
77_Y81_D0.8660.99
99_I103_D0.8650.98
52_A56_Y0.8630.98
73_I76_I0.8590.98
61_R64_R0.8580.98
72_G75_S0.8580.98
159_S162_M0.8580.98
154_T158_I0.8560.98
116_E120_D0.8540.98
191_T309_D0.8500.98
194_D197_G0.8450.98
117_V120_D0.8450.98
125_Y128_S0.8440.98
158_I161_F0.8440.98
234_G298_Y0.8420.98
75_S78_I0.8370.98
277_S289_F0.8320.98
159_S163_K0.8320.98
121_E125_Y0.8310.98
48_Y52_A0.8310.98
98_S101_V0.8300.98
29_L33_M0.8280.98
94_D98_S0.8260.98
60_V64_R0.8180.98
74_I77_Y0.8180.98
46_P50_L0.8170.98
251_A298_Y0.8040.98
136_T140_N0.8040.98
216_P274_S0.7970.97
42_V45_I0.7950.97
138_E141_I0.7930.97
131_L135_G0.7910.97
69_E73_I0.7910.97
107_M110_D0.7790.97
130_Y134_Y0.7780.97
209_I314_L0.7780.97
230_W278_S0.7740.97
49_A53_V0.7660.97
242_D250_F0.7660.97
180_L183_R0.7620.97
220_T297_M0.7600.97
246_T313_H0.7590.97
59_N63_N0.7590.97
189_R290_P0.7580.97
37_H41_A0.7550.96
38_K41_A0.7540.96
250_F295_Y0.7520.96
118_S121_E0.7510.96
41_A45_I0.7490.96
27_P30_S0.7470.96
61_R65_K0.7450.96
43_T47_W0.7420.96
19_A23_K0.7420.96
111_G114_K0.7380.96
302_G307_S0.7330.96
140_N143_I0.7310.96
186_Y210_F0.7300.96
242_D295_Y0.7270.96
126_T129_Q0.7240.96
57_E61_R0.7230.95
205_E307_S0.7230.95
99_I102_F0.7230.95
237_R253_L0.7220.95
197_G201_R0.7220.95
254_N274_S0.7160.95
93_D96_P0.7150.95
95_A99_I0.7150.95
22_K25_S0.7130.95
34_E38_K0.7100.95
238_I260_I0.7090.95
18_S21_G0.7040.95
104_G108_D0.7030.95
182_I211_A0.7010.95
113_G116_E0.6990.95
180_L314_L0.6990.95
248_H295_Y0.6930.94
188_Y311_Y0.6930.94
85_G88_N0.6900.94
160_E164_L0.6850.94
92_K95_A0.6830.94
225_V260_I0.6820.94
76_I80_D0.6800.94
252_H297_M0.6790.94
153_Q157_I0.6780.94
227_M237_R0.6770.94
71_A75_S0.6760.94
115_A119_N0.6740.93
54_D57_E0.6710.93
156_G160_E0.6690.93
253_L275_V0.6690.93
59_N62_S0.6660.93
223_G240_I0.6660.93
24_L28_V0.6640.93
38_K42_V0.6610.93
227_M231_N0.6600.93
35_L39_I0.6580.93
127_F134_Y0.6570.93
18_S25_S0.6560.93
42_V46_P0.6520.92
75_S79_P0.6520.92
249_Y298_Y0.6490.92
308_F313_H0.6470.92
72_G76_I0.6450.92
210_F290_P0.6450.92
253_L257_A0.6390.92
127_F152_D0.6390.92
40_E44_Q0.6390.92
27_P31_K0.6370.91
20_S24_L0.6360.91
235_G276_G0.6360.91
231_N239_G0.6340.91
66_D69_E0.6330.91
252_H288_K0.6300.91
189_R288_K0.6300.91
109_G116_E0.6300.91
239_G298_Y0.6270.91
123_I127_F0.6250.91
234_G237_R0.6230.91
178_F246_T0.6210.90
47_W51_A0.6190.90
188_Y207_T0.6190.90
194_D202_R0.6180.90
197_G205_E0.6160.90
276_G292_H0.6130.90
171_I174_G0.6110.90
171_I175_E0.6100.90
252_H292_H0.6100.90
189_R292_H0.6080.89
254_N257_A0.6070.89
45_I48_Y0.6050.89
120_D134_Y0.6050.89
299_K308_F0.6020.89
175_E221_C0.6010.89
204_H290_P0.5990.89
80_D84_S0.5970.89
190_S208_D0.5970.89
102_F120_D0.5960.88
179_P220_T0.5950.88
105_I108_D0.5950.88
90_N93_D0.5940.88
131_L137_D0.5930.88
241_R301_N0.5920.88
162_M165_F0.5920.88
145_L152_D0.5900.88
178_F313_H0.5890.88
56_Y60_V0.5890.88
102_F127_F0.5850.88
188_Y191_T0.5800.87
208_D279_G0.5780.87
181_P242_D0.5770.87
53_V74_I0.5760.87
77_Y84_S0.5760.87
148_Y155_V0.5740.87
118_S126_T0.5720.86
278_S287_G0.5710.86
211_A214_G0.5690.86
204_H294_H0.5690.86
243_I300_D0.5680.86
273_G293_L0.5670.86
128_S132_L0.5660.86
28_V32_R0.5650.86
131_L134_Y0.5650.86
174_G221_C0.5630.86
51_A55_Q0.5610.85
120_D127_F0.5600.85
91_P95_A0.5590.85
134_Y145_L0.5590.85
207_T310_P0.5570.85
311_Y314_L0.5560.85
53_V56_Y0.5550.85
208_D290_P0.5540.85
192_W308_F0.5510.84
252_H278_S0.5490.84
204_H252_H0.5490.84
253_L293_L0.5480.84
91_P94_D0.5470.84
230_W233_F0.5430.83
217_V293_L0.5430.83
178_F221_C0.5410.83
234_G239_G0.5370.83
171_I178_F0.5360.83
33_M36_Y0.5330.82
42_V88_N0.5330.82
241_R247_Y0.5310.82
134_Y142_R0.5310.82
67_L70_K0.5290.82
249_Y296_G0.5280.82
102_F109_G0.5270.82
28_V31_K0.5240.81
247_Y300_D0.5220.81
189_R204_H0.5220.81
58_E62_S0.5210.81
252_H294_H0.5210.81
193_G203_I0.5210.81
97_L101_V0.5200.81
241_R298_Y0.5180.81
214_G254_N0.5180.81
120_D128_S0.5180.81
143_I146_W0.5130.80
218_K269_G0.5130.80
252_H276_G0.5120.80
84_S89_P0.5110.80
175_E315_R0.5100.80
194_D201_R0.5100.80
129_Q133_S0.5030.79
82_I86_P0.5030.79
252_H290_P0.5030.79
214_G275_V0.5010.78
26_D29_L0.5000.78
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
4bh5A 4 0.3988 100 0.455 Contact Map
2hsiA 1 0.5644 100 0.47 Contact Map
3tufB 1 0.4233 100 0.474 Contact Map
4rnzA 1 0.8957 100 0.481 Contact Map
2gu1A 1 0.8896 100 0.498 Contact Map
1qwyA 1 0.5215 100 0.501 Contact Map
3sluA 1 0.9417 100 0.509 Contact Map
3nyyA 2 0.7025 100 0.509 Contact Map
4qp5A 1 0.4049 100 0.516 Contact Map
4lxcA 4 0.4387 100 0.523 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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